---
title: "2º TidyTuesday - Week 18 2023"
author:
- name: Lucas Toshio Ito
orcid: 0000-0001-9713-8687
email: lucas.toshio@unifesp.br
affiliations:
- name: Universidade Federal de São Paulo (UNIFESP)
toc: true
toc-location: left
toc-title: Contents
number-sections: false
highlight-style: pygments
format:
html:
code-fold: true
code-tools: true
code-link: true
df-print: kable
embed-resources: true
# include-in-header:
# - ./back-to-top.html
# - ./progressbar.html
pdf:
geometry:
- top=10mm
- left=10mm
docx: default
theme:
light: flatly
dark: darkly
css: styles.css
---
::: {style="font-size: 0.9em"}
<a href="mailto:lucas.toshio@unifesp.br">
<span class="fa-stack fa-sm">
<i class="fa fa-circle fa-stack-2x"></i>
<i class="fa fa-envelope fa-stack-1x fa-inverse"></i>
</span>
</a>
<a href="https://twitter.com/lcstoshio">
<span class="fa-stack fa-sm">
<i class="fa fa-circle fa-stack-2x"></i>
<i class="fa-brands fa-twitter fa-stack-1x fa-inverse"></i>
</span>
</a>
<a href="https://github.com/lcstoshio">
<span class="fa-stack fa-sm">
<i class="fa fa-circle fa-stack-2x"></i>
<i class="fa-brands fa-github fa-stack-1x fa-inverse"></i>
</span>
</a>
<a href="http://linkedin.com/in/lucas-toshio-ito-5b8a96199">
<span class="fa-stack fa-sm">
<i class="fa fa-circle fa-stack-2x"></i>
<i class="fa-brands fa-linkedin fa-stack-1x fa-inverse"></i>
</span>
</a>
::: {.content-hidden}
{{< fa brands twitter >}}
:::
```{r}
#| include: FALSE
Sys.setlocale("LC_TIME", "C")
```
**Date:** `r format(Sys.time(), '%B %d, %Y')`
:::
```{r}
#| label = "set options",
#| include = FALSE
# options(width = 700, height= 700)
# knitr::opts_chunk$set(warning = FALSE, message = FALSE, out.width = "100%", fig.showtext = TRUE, retina = 1)
```
<font size="3">
<body>
```{r}
#| results: FALSE
#| message: FALSE
#| warning: FALSE
library(tidyverse)
library(janitor)
library(RColorBrewer)
library(htmltools)
library(htmlwidgets)
library(sysfonts)
library(showtext)
library(fontawesome)
library(ggtext)
# library(webshot2)
library(emojifont)
# font_add('fa-regular', './_extensions/quarto-ext/fontawesome/otfs/Font Awesome 6 Brands-Regular-400.otf')
showtext_auto()
# showtext_opts(dpi = 300)
```
```{r}
#| results: FALSE
#| message: FALSE
#| warning: FALSE
plots <- readr::read_csv('https://raw.githubusercontent.com/rfordatascience/tidytuesday/master/data/2023/2023-05-02/plots.csv')
species <- readr::read_csv('https://raw.githubusercontent.com/rfordatascience/tidytuesday/master/data/2023/2023-05-02/species.csv')
surveys <- readr::read_csv('https://raw.githubusercontent.com/rfordatascience/tidytuesday/master/data/2023/2023-05-02/surveys.csv')
surveys$species <- surveys$species %>%
replace(is.na(.), "NA")
surveys$genus [surveys$species=="BA"] <- "Baiomys"
surveys$genus [surveys$species=="PB" | surveys$species=="PH" | surveys$species=="PI" | surveys$species=="PP"] <- "Chaetodipus"
surveys$genus [surveys$species=="DM" | surveys$species=="DO" | surveys$species=="DS"] <- "Dipodomys"
surveys$genus [surveys$species=="NA"] <- "Neotoma"
surveys$genus [surveys$species=="OL" | surveys$species=="OT"] <- "Onychomys"
surveys$genus [surveys$species=="PF"] <- "Perognathus"
surveys$genus [surveys$species=="PE" | surveys$species=="PL" | surveys$species=="PM"] <- "Peromyscus"
surveys$genus [surveys$species=="RF" | surveys$species=="RM" | surveys$species=="RO"] <- "Reithrodontomys"
surveys$genus [surveys$species=="SF" | surveys$species=="SH" | surveys$species=="SO"] <- "Sigmodon"
balloon <- as.data.frame(table(surveys$year, surveys$genus))
colnames(balloon) <- c("year", "genus", "freq")
balloon <- balloon %>%
arrange (desc(year)) %>%
mutate(row = rep(1:45, each=9)) %>%
arrange (genus) %>%
mutate(col = rep(1:9, each=45))
balloon$freq[balloon$freq<=0] <- NA
balloon <- cbind(emoji('mouse2'), balloon)
colnames(balloon)[1] <- "label"
# Balloon plot format table:
# two columns with the variables, one column with freq, and two columns with row and col number
vars_x_axis <- c(balloon %>% arrange(col) %>% select(genus) %>% distinct())$genus
names_y_axis <- c(balloon %>% group_by(row) %>% distinct(year) %>% ungroup() %>% select(year))$year
colors <- brewer.pal(n = 9, name = "Set1")
colors <- c("#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00", "#d4d404", "#ad4b13", "#d6388b", "#4B5A5D")
graph <-
(ggplot(balloon, aes(x=factor(col), y=factor(row), color=genus, size=freq, alpha=freq, label=label)) +
geom_point() +
geom_text(aes(label=freq, x=col + 0.35), alpha=1.0, size=4) +
scale_alpha_continuous(range=c(0.2, 0.8), "year") +
scale_size_area(max_size = 8) +
scale_x_discrete(breaks=1:length(vars_x_axis), labels=vars_x_axis, position='top') +
scale_y_discrete(breaks=1:length(names_y_axis), labels=names_y_axis)+
# scale_fill_brewer(palette="Set1")+
# scale_color_brewer(palette="Set1")+
scale_fill_manual(values = colors) +
scale_color_manual(values = colors)+
theme_bw() +
theme(axis.line = element_blank(),
panel.border = element_blank(),
panel.grid.major.x = element_blank(),
panel.grid.minor.x = element_blank(),
panel.grid.major.y = element_blank(),
panel.grid.minor.y = element_blank(),
axis.text = element_text(family = "Merriweather", color="gray24", size=10, face="bold"),
axis.title = element_text(family = "Lato", color="gray24", size=14, face="bold"),
axis.ticks = element_blank(),
legend.position = "none",
axis.title.x = element_blank(),
plot.margin = margin(
10, 10, 10, 20
),
plot.title = element_text(
size = 36,
colour = "#2F4F4F",
face="bold",
hjust = 0.5, vjust = 2
),
plot.caption = element_text(
size = 10,
colour = "#2F4F4F",
hjust = 0.97, vjust = 0
),)+
labs(title = "Genus of Rodents in the Portal Project",
# x = "Genus of Rodents \n",
y = "Year \n",
caption = "Data: Portal Project | Graphic: @lcstoshio"))
graph
ggsave("Rodents.png", height=11, width=11)
```
</body>
</font>
